R Observatory: Metrics for triageR version 0.2.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

triageR

0.2.0Package record

Automated Machine Learning and AI Agent Tools for Clinical Prediction Modelling

0packages depend

803downloads / year

75.6%test coverage

13/13flavors OK

Overview

About

Maintained by Uwakmfon PaulCRAN page ↗GitHub ↗Website ↗Issues ↗

Provides a streamlined workflow for building, validating, and reporting clinical prediction models. Combines standard machine learning tools with an optional AI agent that recommends appropriate statistical methods, runs sensitivity analyses, and flags common pitfalls. Includes automated generation of reports aligned with TRIPOD+AI reporting guidance (Collins et al. (2024 doi:10.1136/bmj-2023-078378)) for reproducible, guideline-aligned research.

Changes in 0.2.0

Added calibration plots (binned or smoothed) and Brier score to tr_validate(), closing a TRIPOD+AI reporting gap. New calibration_method argument ("binned" or "smooth").
Calibration plot now included in tr_tripod_report() output.
Added robustness handling for models with limited probability variation (e.g. tree-based models with many identical predictions).
Added survival analysis support: tr_fit_survival() (Cox Proportional Hazards and Random Survival Forest via the censored/aorsf engines) and tr_validate_survival() (concordance index / C-index).
Added tr_launch_app(): an interactive Shiny application for the full triageR workflow (upload data, fit and compare models, validate, explain, review, and download a TRIPOD+AI report) without writing R code.

Show all changes in 0.2.0Hide the rest of the changes in 0.2.0

Fixed test suite reliability issues related to lazy-loaded survival datasets.

From NEWS.md in the release

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("triageR", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("DevWebWacky/triageR")

Development version from DevWebWacky/triageR. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-triager

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-triageR

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-triageR

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 3.1 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-09
ERROR5 ERROR2026-07-30

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.2.0

READMEYes · 527 wordsVignettesYes · 3 · evaluation depends on the environmentNEWSYes · 100% structured · mentions 0.2.0Citation fileNoWebsiteYes · pkgdown

Help pages: 14 (1 internal)includes a package overview page
Examples that run: 62%8 run in a plain check (3 of them under a condition) · 5 never run
Exported functions with examples: 100%
Documented parameters: 99%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (3)

Case Study: Breast Cancer Diagnosis HTML
Introduction to triageR HTML
Survival Analysis with triageR HTML

How these are measured

Downloads

803

CRAN downloads in the past year

Rank #14,408 · ~2/day · ~67/mo

Releases R versions

Daily download trend is not available in this view yet.

32830 days

80390 days

8031 year

Compare downloads with other packages →

Also on23 r2u3 autocran

How downloads are counted

Repository

devwebwacky/triager ↗Account: DevWebWacky

0Stars

0Forks

1Open issues

0Open PRs

0Releases

Last activity 2026-09-05

Responsiveness

not measured

Issues over time

2026-07-30 · 02026-08-02 · 1

How these are measured

PracticesBeta

9 development-tooling and community-health practices detected across 4 families in the upstream repository

Checks run against github.com/devwebwacky/triager on 2026-10-11.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

Docs source (4)

README.Rmdpkgdown

GitHub Pages site last deployed 2026-09-05 · The repository has a site deploy workflow

pkgdown site last built 2026-09-05

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v3 (2026-09-26)

Dependencies

Declared dependencies

26 external dependencies (excludes base and recommended)

Installing triageR adds 134 packages (66 with compiled code, 108 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB.

Depends (1)

R >= 4.1.0

Imports (15)

DALEX dplyr ellmer ggplot2 mice naniar parsnip pROC quarto recipessurvivaltibble tidyr workflows yardstick

LinkingTo (0)

none

Suggests (13)

knitr rmarkdown mlbench missForest ranger spelling testthat xgboostMASSaorsf censored shiny bslib

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (1)

Uwakmfon Paul

Releases (3)

Pick two releases to compare their code metrics.

0.2.0Latest
record
2026-09-05 · current release · diff ↗ ·
added 3 exports
tr_fit_survival, tr_launch_app, tr_validate_survival
0.1.1
record
2026-08-02 · diff ↗
0.1.0
record
2026-07-29
R
R 4.6.0 released · 2026-04-24

Package metadata

First published: 2026-07-29
Total releases: 3 / 1 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 4.1.0
Download size: 263 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("triageR")

Format

Paul, U. (2026). triageR: Automated Machine Learning and AI Agent Tools for Clinical Prediction Modelling (Version 0.2.0) [Computer software]. https://doi.org/10.32614/CRAN.package.triageR

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for triageR version 0.2.0 [Data set]. HJJB, LLC. Data release v2026-10-17. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-17, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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